The objective of this article is to provide an overview of the existing literature concerning the identification of genetic markers associated with obesity and diabetes. Specifically, this article will review recent association studies of diabetes and obesity with an emphasis on the need for the replication of findings. Unfortunately, a substantial number of the published associations between genetic markers and phenotypes, including diabetes and obesity, have not been replicated. Literature that addresses the potential reasons for the nonreplication of association studies (population stratification, publication bias, effect heterogeneity, Type I errors and lack of statistical power) is summarized. Recommendations to improve future association studies are presented.